params_process.PhyloEM

an object of class <code><a rd-options="" href="/link/PhyloEM?package=PhylogeneticEM&version=1.0.0" data-mini-rdoc="PhylogeneticEM::PhyloEM">PhyloEM</a></code>

(optional) the method selection to be used.
One of "LINselect", "DDSE", "Djump". Default to "LINselect".

method.selection

(optional) an integer giving the number of shifts for which to retrieve
the parameters. Default to NULL (automatically selected number of shifts, see
<code>method.selection</code> argument).

(optional) a value of alpha for which to retrieve the parameters. Can
be an (un-ambiguous) estimation of the true value. If
precised, then <code>K</code> must be precised too. Default to NULL (automatically
selected value, see <code>method.selection</code> argument).

alpha

(optional) if TRUE, and if the process is "scOU", returns the raw
parameters of the BM on the re-scaled tree. Default to FALSE.

(optional) if TRUE, gives the parameters from the initialization of
the EM. Default to FALSE. This has no effect if <code>K</code> is not specified.

init


<code>params</code> takes an object of class <code><a rd-options="" href="/link/PhyloEM?package=PhylogeneticEM&version=1.0.0" data-mini-rdoc="PhylogeneticEM::PhyloEM">PhyloEM</a></code>, and returns the 
infered parameters of the process.



Implementation of the automatic shift detection method for
Brownian Motion (BM) or Ornstein–Uhlenbeck (OU) models of trait evolution on
phylogenies. Some tools to handle equivalent shifts configurations are also
available.

Paul Bastide

PhylogeneticEM

Automatic Shift Detection using a Phylogenetic EM

params_process.PhyloEM function

an object of class <code><a rd-options='' href='PhyloEM'>PhyloEM</a></code>


<code>params</code> takes an object of class <code><a rd-options='' href='PhyloEM'>PhyloEM</a></code>, and returns the 
infered parameters of the process.


params_process.PhyloEM: Parameter estimates

Description

Usage

Arguments

Value

See Also